The Detection of in Vivo and in Vitro HIV Type 1 B/F Profiles in Brazil Using a Real-Time PCR Assay for Five HIV Type 1 Genomic Regions

The Detection of in Vivo and in Vitro HIV Type 1 B/F Profiles in Brazil Using a Real-Time PCR Assay for Five HIV Type 1 Genomic Regions

Author Teixeira, Daniela Autor UNIFESP Google Scholar
Munerato, Patricia Autor UNIFESP Google Scholar
Vasconcelos Komninakis, Shirley Cavalcante Autor UNIFESP Google Scholar
Fusuma, Erika Etsuko Autor UNIFESP Google Scholar
Janini, Luiz Mario Autor UNIFESP Google Scholar
Araripe Sucupira, Maria Cecilia Autor UNIFESP Google Scholar
Diaz, Ricardo Sobhie Autor UNIFESP Google Scholar
Institution Universidade Federal de São Paulo (UNIFESP)
Abstract We sought to determine the frequency and profile of HIV-1 BF recombinants in vitro and in vivo. Laboratory HIV-1 strains from subtypes B and F were cocultured and evaluated. Clinical samples from the city of Santos, Brazil, where the first HIV-1 B/F circulating recombinant forms (CRF) were described, were also assessed. Five real-time PCR assays were developed to equally amplify subtypes B and F, and subtype-specific probes were developed and optimized. To validate the PCR systems, clinical samples from Santos were sequenced and phylogenetically analyzed. the real-time PCR assays were performed on these samples and on the supernatant of an in vitro competition assay to assess emergent recombinant strains. Out of 157 clinical samples, 62.1% were defined as subtype B, 3.0% were subtype F, 16.7% presented the CRF28_BF profile, and 13.6% of the samples presented the CRF29_BF profile. the specificity and sensitivity in the discrimination assay for this sample panel were 93% and 92%, respectively. the HIV that emerged from the coinfected cell culture closely resembled the CRF28_BF profile. the first-described CRFs are still fixed in this geographic region of Brazil, and the in vitro emerging strains detected by real-time PCR suggest that in addition to the shaping of recombinant strains by immune selection, viral structures may also play an important role in emerging CRFs.
Language English
Sponsor Department of STD/AIDS of the Ministry of Health
Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
Grant number FAPESP: 04/15856-9
FAPESP: 06/52722-6
Date 2010-09-01
Published in Aids Research and Human Retroviruses. New Rochelle: Mary Ann Liebert Inc, v. 26, n. 9, p. 981-990, 2010.
ISSN 0889-2229 (Sherpa/Romeo, impact factor)
Publisher Mary Ann Liebert Inc
Extent 981-990
Origin http://dx.doi.org/10.1089/aid.2010.0023
Access rights Closed access
Type Article
Web of Science ID WOS:000281510000007
URI http://repositorio.unifesp.br/handle/11600/32889

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